The Russian native has apparently returned to Dagestan to attend to his ailing father, who has been battling an undisclosed illness.
Bellator newcomer Justin Wilcox will replace Shamhalaev and will face Akop Stepanyan in the Bellator Featherweight Tournament Opening Round, live on Spike TV.
Wilcox has dropped back-to-back fights, most recently falling short against Jorge Masvidal in the Strikeforce ranks.
Bellator 99 takes place Saturday, Sept. 14 at Pechanga Resort & Casino in Temecula, Calif.
The first fight of the night will begin at 4:30 p.m. and the live national television broadcast on Spike TV starts at 6 p.m., as well as in Spanish language on mun2.
The preliminary card will be streamed live and free on Spike.com.
Tickets for the event start at just $50, and can be purchased by visiting Pechanga.com, Bellator.com, or by calling the Pechanga Box Office at 877-711-2946 or visiting between noon and 8 p.m. daily.
Shamhalaev (12-2-1 MMA, 3-1 BMMA) made his Bellator debut in the Season 7 tournament field and earned a title shot with stoppages of Cody Bollinger, Mike Richman and Rad Martinez.
In his title fight against Pat Curran, he didn't fare so well. He was choked unconscious in the first round.
Due to the changes, the new Bellator 99 card features the following:
- Bellator Featherweight Opening Round: Patricio Pitbull (17-2) vs. Diego Nunes (18-4)
- Bellator Featherweight Opening Round: Justin Wilcox (11-5) vs. Akop Stepanyan (13-5)
- Bellator Featherweight Opening Round: Des Green (8-1) vs. Fabricio Guerreiro (17-1)
- Bellator Featherweight Opening Round: Joe Taimanglo (18-4) vs. Andrew Fisher (12-4)
- Bellator Light Heavyweight Feature Fight: Vladimir Matyushenko (26-7) vs. Houston Alexander (15-9)
- Light Heavyweight Feature Fight: Savio Kosic (4-1) vs. Hector Ramirez (9-5)
- Bantamweight Feature Fight: Derek Loffer (4-1) vs. Mario Navarro (4-3)
- Welterweight Feature Fight: Andy Murad (6-0) vs. Gavin Sterritt (4-1)
- Featherweight Feature Fight: Musa Toliver (9-8) vs. Goiti Yamauchi (14-1)
- Heavyweight Feature Fight: Manny Lara (4-3) vs. Blagoi Ivanov (7-0)
- Light Heavyweight Feature Fight: Nick Moghaddam (6-6) vs. Virgil Zwicker (10-3)